Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 209 of 325
Found at i:67689106 original size:100 final size:100
Alignment explanation
Indices: 67688927--67689142 Score: 283
Period size: 100 Copynumber: 2.2 Consensus size: 100
67688917 GCTAAATGAC
* * * ** *
67688927 CTTGTATATTCAGCCACATAGGTATGTACATATGTGATGTTGTATTAGGTCTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTAGATCTTGAATATTCGGCC
*
67688992 ATGAAGGTATGCACAAATGCGATATTATATTTAAAT
66 ATGAAGGTAAGCACAAATGCGATATTATATTT-AAT
* * *
67689028 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTAGATCTTGAATATTCGGCC
* *
67689092 AT-ATAGGTAAGCACATATGTGATATTATATTTAAT
66 ATGA-AGGTAAGCACAAATGCGATATTATATTTAAT
*
67689127 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
67689143 AATGAGTGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 4 0.04
100 96 0.96
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTAGATCTTGAATATTCGGCC
ATGAAGGTAAGCACAAATGCGATATTATATTTAAT
Found at i:67697946 original size:93 final size:93
Alignment explanation
Indices: 67697834--67698002 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
67697824 CTATAAGCAC
* * *
67697834 ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAATG
1 ACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
67697899 AGTTCGGATGCCTAGTTACATCTCACGA
66 AGTTCGGATGCCTAGTTACATCTCACGA
*
67697927 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
67697992 AGTTCGGATGC
66 AGTTCGGATGC
67698003 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCACGA
Found at i:67697999 original size:46 final size:46
Alignment explanation
Indices: 67697834--67697999 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 46
67697824 CTATAAGCAC
* * *
67697834 ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGA
* * * *
67697880 ACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CGA
1 ACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGTGA
67697927 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGA
67697973 ACTCGGACTCAACTCAACGAGTTCGGA
1 ACTCGGACTCAACTCAACGAGTTCGGA
67698000 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 53 0.53
47 28 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
ACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGA
Found at i:67705492 original size:93 final size:93
Alignment explanation
Indices: 67705380--67705551 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
67705370 CGCCCATAAG
* *
67705380 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
67705445 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
67705473 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
67705538 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
67705552 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:67705548 original size:46 final size:46
Alignment explanation
Indices: 67705373--67705548 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
67705363 TGTAACCCGC
* * *
67705373 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
67705419 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
67705469 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
67705512 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
67705549 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:67708031 original size:34 final size:32
Alignment explanation
Indices: 67707985--67708054 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 32
67707975 CTAAACCCTT
*
67707985 ATTTACTTTACTTGAAATAAAAAAAAACCTTTTA
1 ATTTACTCTACTTGAAAT-AAAAAAAA-CTTTTA
67708019 ATTTACTCTACTTGAAATAAAAAAAACTTTTA
1 ATTTACTCTACTTGAAATAAAAAAAACTTTTA
67708051 ATTT
1 ATTT
67708055 TGATGATCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 10 0.29
33 8 0.23
34 17 0.49
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (32 bp):
ATTTACTCTACTTGAAATAAAAAAAACTTTTA
Found at i:67709400 original size:25 final size:25
Alignment explanation
Indices: 67709372--67709423 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
67709362 TTTGGCTTGA
*
67709372 CATTTACTAAGAAATATCGAATATT
1 CATTTACTAAGAAATATCAAATATT
* * *
67709397 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGAAATATCAAATATT
67709422 CA
1 CA
67709424 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGAAATATCAAATATT
Found at i:67710687 original size:11 final size:11
Alignment explanation
Indices: 67710671--67710695 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
67710661 TTCAGCTGAT
67710671 GAAAATGAAGA
1 GAAAATGAAGA
67710682 GAAAATGAAGA
1 GAAAATGAAGA
67710693 GAA
1 GAA
67710696 TTCTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:67717871 original size:41 final size:41
Alignment explanation
Indices: 67717823--67718042 Score: 264
Period size: 41 Copynumber: 5.3 Consensus size: 41
67717813 TATTCGGGCT
*
67717823 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCGGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
*
67717864 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* * * *
67717905 TTATTACCTAGCAGGCTTTGTGTCGGTGTATTATATCAAGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* ** * *
67717946 TTATTGCCTAGCAGGCTTTATATGCATGTGTATTATATCAGAC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTAAATCAGGC
* * *
67717989 TTATTGTCTAGCAGGCTTTGTGCCGGTGTTTTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATC-AGGC
67718030 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
67718043 AATTTTATGT
Statistics
Matches: 154, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
40 2 0.01
41 116 0.75
42 4 0.03
43 32 0.21
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:67718050 original size:84 final size:84
Alignment explanation
Indices: 67717823--67718050 Score: 230
Period size: 84 Copynumber: 2.7 Consensus size: 84
67717813 TATTCGGGCT
* * ** ** *
67717823 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCGGGCTTATTGCCTAGCAGGC-TT-TGTG
1 TTATTACCTAGCAGGCTTTGTGCCGGTGTATTATATCAAGCTTATTGCCTAGCAAACTTTATATG
** * *
67717886 CCGGTGTATTAAATTAGGC
66 CATGTGTATTAAATCAGAC
* **
67717905 TTATTACCTAGCAGGCTTTGTGTCGGTGTATTATATCAAGCTTATTGCCTAGCAGGCTTTATATG
1 TTATTACCTAGCAGGCTTTGTGCCGGTGTATTATATCAAGCTTATTGCCTAGCAAACTTTATATG
*
67717970 CATGTGTATTATATCAGAC
66 CATGTGTATTAAATCAGAC
** * * *
67717989 TTATTGTCTAGCAGGCTTTGTGCCGGTGTTTTATA-CTAGGCTT-TATGCCTAGCAAATTTTAT
1 TTATTACCTAGCAGGCTTTGTGCCGGTGTATTATATC-AAGCTTAT-TGCCTAGCAAACTTTAT
67718051 GTGAACAACG
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 52 0.42
83 4 0.03
84 67 0.54
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (84 bp):
TTATTACCTAGCAGGCTTTGTGCCGGTGTATTATATCAAGCTTATTGCCTAGCAAACTTTATATG
CATGTGTATTAAATCAGAC
Found at i:67720624 original size:96 final size:96
Alignment explanation
Indices: 67720464--67720687 Score: 227
Period size: 96 Copynumber: 2.3 Consensus size: 96
67720454 GATATGCGTG
* * * * * * * *
67720464 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACAT--CATGAGAGCCAGTGTAAGAGCAT
1 CCAGTGTAAGACCATGTCTGGAACATAGCATC-G-AAAATGAGACGAGAGCCAGTGTAAAACCAT
** * * * * **
67720527 GTCTGGGACATGGCATCGGCGTTGATATGTGCG
64 GTCTAAGACATGGCATCAGCCTCGACATGTGAA
* * *
67720560 CTAGTGTAAGACCATGTCTGGGACATAGCATCGAAAATGAGACGAGAGCTAGTGTAAAACCATGT
1 CCAGTGTAAGACCATGTCTGGAACATAGCATCGAAAATGAGACGAGAGCCAGTGTAAAACCATGT
67720625 CTAAGACATGGCATCAGCCTCGACATGTGAA
66 CTAAGACATGGCATCAGCCTCGACATGTGAA
* *
67720656 CCAGTGTAAGACCATGTTTGGAACATGGCATC
1 CCAGTGTAAGACCATGTCTGGAACATAGCATC
67720688 AGCAATTCAC
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
94 3 0.03
95 1 0.01
96 99 0.96
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (96 bp):
CCAGTGTAAGACCATGTCTGGAACATAGCATCGAAAATGAGACGAGAGCCAGTGTAAAACCATGT
CTAAGACATGGCATCAGCCTCGACATGTGAA
Found at i:67720688 original size:48 final size:48
Alignment explanation
Indices: 67720463--67720690 Score: 183
Period size: 48 Copynumber: 4.8 Consensus size: 48
67720453 TGATATGCGT
* * *
67720463 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATCATGAGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGA-CATGAGA
* * * * * * * *
67720511 GCCAGTGTAAGAGCATGTCTGGGACATGGCATCGGCGTTGATATGTGC
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGACATGAGA
* * * *** * *
67720559 GCTAGTGTAAGACCATGTCTGGGACATAGCATCGAAAAT-GAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATC-AGCCTCGACATGAGA
* * * *
67720607 GCTAGTGTAAAACCATGTCT-AAGACATGGCATCAGCCTCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGA-ACATGGCATCAGCCTCGACATGAGA
* *
67720655 ACCAGTGTAAGACCATGTTTGGAACATGGCATCAGC
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGC
67720691 AATTCACCCT
Statistics
Matches: 140, Mismatches: 35, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
47 2 0.01
48 135 0.96
49 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGACATGAGA
Found at i:67725011 original size:48 final size:49
Alignment explanation
Indices: 67724957--67725140 Score: 219
Period size: 48 Copynumber: 3.8 Consensus size: 49
67724947 CGTGAGCCAA
67724957 TGTAAGACCATGTTTGGAACATGGCATCGGCAT-TTACATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTACATGAGAGCTAG
* * * * * * *
67725005 TGTAAGACCATGTATGGGACATGGCATCAGCCTCGT-CATGTGGGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTACATGAGAGCTAG
* * * * *
67725053 TGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATGAGAACCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATC-TTACATGAGAGCTAG
* *
67725103 TGTAAGACCATGTCTGGGACATGGCATCGGCATCTTAC
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTAC
67725141 CCTTTTGTAT
Statistics
Matches: 110, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
48 68 0.62
49 4 0.04
50 38 0.35
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTACATGAGAGCTAG
Found at i:67726102 original size:81 final size:81
Alignment explanation
Indices: 67726009--67726170 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 81
67725999 ATTTGGCAAA
* * *
67726009 CAGAATACCCAGTAGTAACCATATAGGTGGAGACATGGCTGTCTGTCTTAACCGTGTAGAGGACA
1 CAGAATACCCAGTAGTAACCATACAGGTGGAGACATGGCTGTCTGCCTTAACCATGTAGAGGACA
67726074 CGACCTAGCACACGGG
66 CGACCTAGCACACGGG
67726090 CAGAATACCCAGTAGTAACCATACAGGTGGAGACATGGCTGTCTGCCTTAACCATGTAGAGGACA
1 CAGAATACCCAGTAGTAACCATACAGGTGGAGACATGGCTGTCTGCCTTAACCATGTAGAGGACA
67726155 CGACCTAGCACACGGG
66 CGACCTAGCACACGGG
67726171 AGTGTGCCTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.19
Consensus pattern (81 bp):
CAGAATACCCAGTAGTAACCATACAGGTGGAGACATGGCTGTCTGCCTTAACCATGTAGAGGACA
CGACCTAGCACACGGG
Found at i:67729501 original size:14 final size:16
Alignment explanation
Indices: 67729482--67729525 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
67729472 AGCAACCCAT
67729482 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
67729496 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
67729512 ATTAAGTTTAATTT
1 ATTTA-TTTAATTT
67729526 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:67742881 original size:30 final size:30
Alignment explanation
Indices: 67742847--67742930 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
67742837 ATTTTCAGAC
*
67742847 CTAGGGGTAAAATGGTCATTTTGCAAAAGT
1 CTAGGGGAAAAATGGTCATTTTGCAAAAGT
* *
67742877 CTAGGGGCAAAATGGTCATTTTGTAAAAGT
1 CTAGGGGAAAAATGGTCATTTTGCAAAAGT
*
67742907 ATAGGGGAAAAATGGTCATTTTGC
1 CTAGGGGAAAAATGGTCATTTTGC
67742931 CCAATTTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (30 bp):
CTAGGGGAAAAATGGTCATTTTGCAAAAGT
Found at i:67743453 original size:94 final size:93
Alignment explanation
Indices: 67743265--67743489 Score: 274
Period size: 94 Copynumber: 2.4 Consensus size: 93
67743255 TCATTTGTGT
* * * * *
67743265 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGAT-GGAGCCAGTATAAGACCATATC
**
67743330 TGGGACATGGCATCGGCATTGAGACGAGA
65 TGGGACATGGCATCGGCACGGAGACGAGA
* *
67743359 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGAT-GTGCTAGTATAAGACCATATCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGGAGCCAGTATAAGACCATATCT
*
67743423 GGGACATGGCATCGGCACGGATACGTGAGA
66 GGGACATGGCATCGGCACGGAGAC--GAGA
* *
67743453 G-TCAGTGTAAGACCATGTCTAGGACATGGCATTGACT
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACT
67743490 TAACGTAAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
92 39 0.34
93 1 0.01
94 53 0.46
95 13 0.11
96 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGGAGCCAGTATAAGACCATATCT
GGGACATGGCATCGGCACGGAGACGAGA
Found at i:67743517 original size:142 final size:138
Alignment explanation
Indices: 67743262--67743524 Score: 313
Period size: 142 Copynumber: 1.9 Consensus size: 138
67743252 GGGTCATTTG
* * *
67743262 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCAT
1 TGTGCTAGTATAAGACATATCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCAT
* * * *
67743327 GTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGA
66 GTCTAGGACATGGCATCGACATTGAGACGAGAGCTAATGTAAAACATGTCTGGGACATGCATCGA
67743392 CTACATGA
131 CTACATGA
*
67743400 TGTGCTAGTATAAGACCATATCTGGGACATGGCATCGG-CACGGA-TACGTGAGAGTCAGTGTAA
1 TGTGCTAGTATAAGA-CATATCTGGGACAT-GCATCGGCCAC--ATTA--TGAGAGCCAGTGTAA
*
67743463 GACCATGTCTAGGACATGGCATTGAC-TT-A-ACGTAAGAG-TCAATGTAAAACCATGTCTGGGA
60 GACCATGTCTAGGACATGGCATCGACATTGAGACG--AGAGCT-AATGTAAAA-CATGTCTGGGA
67743524 C
121 C
67743525 CTGGCATTAG
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
138 14 0.13
139 19 0.18
140 11 0.10
141 14 0.13
142 48 0.45
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (138 bp):
TGTGCTAGTATAAGACATATCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCAT
GTCTAGGACATGGCATCGACATTGAGACGAGAGCTAATGTAAAACATGTCTGGGACATGCATCGA
CTACATGA
Found at i:67749251 original size:30 final size:31
Alignment explanation
Indices: 67749188--67749252 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
67749178 AATATTTTTT
* *
67749188 AATAATAATTATTCCTATTTATTTATGTTTA
1 AATAATAATTATTACTATTTATTTATGTATA
*
67749219 AATAA-AATTATTAGTATTTATTTAT-TAATA
1 AATAATAATTATTACTATTTATTTATGT-ATA
67749249 AATA
1 AATA
67749253 CATTATACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 24 0.80
31 5 0.17
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (31 bp):
AATAATAATTATTACTATTTATTTATGTATA
Found at i:67755590 original size:3 final size:3
Alignment explanation
Indices: 67755573--67755644 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
67755563 GTTAAGATTT
* * *
67755573 TTA TTA TAA TATA TTA TT- TTA TTA TTA -TA TTA ATA TTA -CA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
67755616 -TA TTA -TA TTA -TA TTA TTA TATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T
67755645 GTTATATATA
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
2 11 0.20
3 39 0.71
4 5 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:67755594 original size:18 final size:19
Alignment explanation
Indices: 67755571--67755654 Score: 75
Period size: 18 Copynumber: 4.5 Consensus size: 19
67755561 TAGTTAAGAT
67755571 TTTTATTATAATA-TATTA
1 TTTTATTATAATATTATTA
* *
67755589 TTTTATTATTATATTAATA
1 TTTTATTATAATATTATTA
** *
67755608 TTACATTATATTA-TATTA
1 TTTTATTATAATATTATTA
*
67755626 TATTATTAT-ATATTATTA
1 TTTTATTATAATATTATTA
*
67755644 TGTTATATATA
1 TTTTAT-TATA
67755655 TAAAACAAAG
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
17 2 0.04
18 32 0.64
19 16 0.32
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTTATTATAATATTATTA
Found at i:67755597 original size:8 final size:8
Alignment explanation
Indices: 67755582--67755641 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
67755572 TTTATTATAA
67755582 TATATTAT
1 TATATTAT
*
67755590 TTTATTAT
1 TATATTAT
67755598 TATATTA-
1 TATATTAT
67755605 -ATATTACAT
1 TATATT--AT
67755614 TATATTATAT
1 TATA-T-TAT
67755624 TATATTAT
1 TATATTAT
67755632 TATA-TAT
1 TATATTAT
67755639 TAT
1 TAT
67755642 TATGTTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
6 5 0.11
7 6 0.14
8 21 0.48
9 1 0.02
10 9 0.20
11 1 0.02
12 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:67755603 original size:5 final size:5
Alignment explanation
Indices: 67755574--67755655 Score: 76
Period size: 5 Copynumber: 15.6 Consensus size: 5
67755564 TTAAGATTTT
* * *
67755574 TATTA TAATA TATTA TTTTA TTATTA TATTAA TATTA CATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA -TATTA TATT-A TATTA TATTA TATTA TATTA
*
67755626 TATTA TTATATA TTATTA TGTTA TA-TA TAT
1 TATTA -TAT-TA -TATTA TATTA TATTA TAT
67755656 AAAACAAAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
4 4 0.06
5 40 0.62
6 14 0.22
7 6 0.09
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:67761870 original size:46 final size:47
Alignment explanation
Indices: 67761808--67761947 Score: 169
Period size: 46 Copynumber: 3.0 Consensus size: 47
67761798 TTATCTTTGA
* * * *
67761808 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCATAT
**
67761854 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTGTTCA-TTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCATAT
* * * *
67761900 CAGGTTGCCATGGTATTTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCATAT
67761946 CA
1 CA
67761948 GAGAGCACAC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 4 0.05
46 77 0.95
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:67767001 original size:46 final size:45
Alignment explanation
Indices: 67766944--67767125 Score: 238
Period size: 46 Copynumber: 4.0 Consensus size: 45
67766934 TTTGACATGA
* * * * *
67766944 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCATTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATTCAGGT
* ***
67766990 TGCCATGGTGTCTTTCAACCATGGTCTTGTTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TCAGGT
*
67767036 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAAATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-ATTCAGGT
67767082 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TCAG
67767126 AGAGCACACT
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
45 7 0.06
46 114 0.93
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTCAGGT
Found at i:67775608 original size:17 final size:17
Alignment explanation
Indices: 67775586--67775618 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
67775576 CAGTATGATT
67775586 ATATGTGATT-ATTTGAA
1 ATATGT-ATTGATTTGAA
67775603 ATATGTATTGATTTGA
1 ATATGTATTGATTTGA
67775619 TGTTGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (17 bp):
ATATGTATTGATTTGAA
Found at i:67784716 original size:43 final size:43
Alignment explanation
Indices: 67784645--67784740 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
67784635 GGATTACGTG
**
67784645 TAAGACCATA-TCTGGGATATGGCATCGATATGAGATTTCATA
1 TAAGACCATAGTCTGGGATATGGCATCGATATGAGATCCCATA
* *
67784687 TAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATCCCATG
1 TAAGACCATAGTCTGGGATA-TGGCATCGATATGAGATCCCATA
67784730 TAAGACCATAG
1 TAAGACCATAG
67784741 AATATGGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
42 16 0.33
43 32 0.67
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGTCTGGGATATGGCATCGATATGAGATCCCATA
Found at i:67784962 original size:14 final size:15
Alignment explanation
Indices: 67784926--67784963 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
67784916 AATCCCTCGG
*
67784926 TAAGGTTATGATTGC
1 TAAGGTTATGATTAC
*
67784941 TCAGGTTATGA-TAC
1 TAAGGTTATGATTAC
67784955 TAAGGTTAT
1 TAAGGTTAT
67784964 AATAATATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (15 bp):
TAAGGTTATGATTAC
Found at i:67786959 original size:22 final size:23
Alignment explanation
Indices: 67786933--67786978 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
67786923 CAACCAAACC
67786933 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
67786955 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
67786978 A
1 A
67786979 CGTTATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:67790097 original size:11 final size:11
Alignment explanation
Indices: 67790083--67790111 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
67790073 TTTTTTAATA
67790083 TTATTTTCTTC
1 TTATTTTCTTC
67790094 TTATTTTCTTC
1 TTATTTTCTTC
67790105 TTATTTT
1 TTATTTT
67790112 ACTACCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTCTTC
Found at i:67790218 original size:30 final size:30
Alignment explanation
Indices: 67790182--67790244 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
67790172 ACTTATTTTA
*
67790182 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
*
67790212 TTGTTAATTTTATTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
67790242 TTG
1 TTG
67790245 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:67790398 original size:12 final size:12
Alignment explanation
Indices: 67790368--67790400 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
67790358 TATATATTTT
67790368 AAAATT-ATATA
1 AAAATTAATATA
67790379 AAAA-TAATATA
1 AAAATTAATATA
67790390 AAAATTAATAT
1 AAAATTAATAT
67790401 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:67792901 original size:3 final size:3
Alignment explanation
Indices: 67792895--67792949 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
67792885 ACTTTTTATT
67792895 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67792943 ATA ATA A
1 ATA ATA A
67792950 AACTTTAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:67795494 original size:35 final size:35
Alignment explanation
Indices: 67795448--67795517 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
67795438 TTGCATGTTC
*
67795448 AATTTTGTTTTTTAGATTTCAATATCAATTACAGG
1 AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
67795483 AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
1 AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
67795518 TGGAGCATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (35 bp):
AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
Found at i:67798695 original size:61 final size:61
Alignment explanation
Indices: 67798592--67798720 Score: 197
Period size: 61 Copynumber: 2.1 Consensus size: 61
67798582 AATAAAAATT
* *
67798592 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTTCAACAAGAGATATGACAA
1 TTCAAGCACAAATACTTAAACAAAACATAAACATATTAAATTTCAACAAGAGATATGACAA
* * * *
67798653 TTCAAGCACAAATACTTATACAAAACATAAACATGTTAAATTTCAACAAGAGTTATGATAA
1 TTCAAGCACAAATACTTAAACAAAACATAAACATATTAAATTTCAACAAGAGATATGACAA
67798714 TT-AAGCA
1 TTCAAGCA
67798721 TTGGAGAAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 5 0.08
61 57 0.92
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.26
Consensus pattern (61 bp):
TTCAAGCACAAATACTTAAACAAAACATAAACATATTAAATTTCAACAAGAGATATGACAA
Found at i:67799789 original size:13 final size:13
Alignment explanation
Indices: 67799757--67799795 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
67799747 CTAACCTATT
67799757 AACTTAAGTT-TA
1 AACTTAAGTTCTA
*
67799769 ATCTTAAGTTCTA
1 AACTTAAGTTCTA
67799782 AACTTAAGTTCTA
1 AACTTAAGTTCTA
67799795 A
1 A
67799796 GTTTTAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (13 bp):
AACTTAAGTTCTA
Found at i:67799811 original size:32 final size:30
Alignment explanation
Indices: 67799761--67799821 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
67799751 CCTATTAACT
*
67799761 TAAGTTTAATCTTAAGTTCTAAACTTAAGTTC
1 TAAGTTTAATCCTAAGTTCT-AA-TTAAGTTC
67799793 TAAGTTTTAATCCT-AGTTCTAATTAAGTT
1 TAAG-TTTAATCCTAAGTTCTAATTAAGTT
67799822 AAGAGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 2 0.07
32 10 0.37
33 8 0.30
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (30 bp):
TAAGTTTAATCCTAAGTTCTAATTAAGTTC
Found at i:67827575 original size:27 final size:27
Alignment explanation
Indices: 67827545--67827604 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
67827535 AATTTGAATT
*
67827545 AAAGACTTGATTTTATGATTTTGAAAC
1 AAAGACTTGATTTTATAATTTTGAAAC
*
67827572 AAAGATTTGATTTTATAATTTTGAAAC
1 AAAGACTTGATTTTATAATTTTGAAAC
67827599 AAAGAC
1 AAAGAC
67827605 ATAAGTGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (27 bp):
AAAGACTTGATTTTATAATTTTGAAAC
Found at i:67831755 original size:169 final size:169
Alignment explanation
Indices: 67831471--67831779 Score: 510
Period size: 169 Copynumber: 1.8 Consensus size: 169
67831461 AAAACAATAT
* * * * * * *
67831471 CAAAGATGGTATCGATAAAAATATAGTAGTTATCGGTATTTTTTGAAAAGTATTGATACTTTTTG
1 CAAAAATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
* * *
67831536 TTTTTGTTCAATTTTTGTTTTAAGTCAATAAGCAAGTTTGGTATCAATCTTTAAATAGGTATCAA
66 CTTTTGTTCAATTTTTGTTTCAAGTCAATAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAA
67831601 TAAAAATTGTGATTGTTTAAAAATCATTAAGTCATAATG
131 TAAAAATTGTGATTGTTTAAAAATCATTAAGTCATAATG
67831640 CAAAAATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
1 CAAAAATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
* *
67831705 CTTTTGTTCAATTTTTGTTTCAAGTCAGTAAGTAAGTTTGGTATCAATCTTGAAATAGGTATCAA
66 CTTTTGTTCAATTTTTGTTTCAAGTCAATAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAA
67831770 TAAAAATTGT
131 TAAAAATTGT
67831780 ATGAGTATCA
Statistics
Matches: 128, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
169 128 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (169 bp):
CAAAAATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
CTTTTGTTCAATTTTTGTTTCAAGTCAATAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAA
TAAAAATTGTGATTGTTTAAAAATCATTAAGTCATAATG
Found at i:67846277 original size:14 final size:14
Alignment explanation
Indices: 67846258--67846288 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
67846248 CCGATAACTA
67846258 ATATATGGCATGTC
1 ATATATGGCATGTC
67846272 ATATATGGCATGTC
1 ATATATGGCATGTC
67846286 ATA
1 ATA
67846289 CTCAACCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (14 bp):
ATATATGGCATGTC
Found at i:67847109 original size:28 final size:29
Alignment explanation
Indices: 67847076--67847145 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
67847066 TTTCAAAGTC
*
67847076 TCACCACAAAGGCGTCC-TTTGATAGAGA
1 TCACCACAAAGGCGTCCTTTTAATAGAGA
* * *
67847104 TTACCATAAAGGCTTCCTTTTAATAGAGA
1 TCACCACAAAGGCGTCCTTTTAATAGAGA
*
67847133 TCACTACAAAGGC
1 TCACCACAAAGGC
67847146 ATCCATTCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 14 0.41
29 20 0.59
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (29 bp):
TCACCACAAAGGCGTCCTTTTAATAGAGA
Found at i:67847836 original size:27 final size:27
Alignment explanation
Indices: 67847776--67847827 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
67847766 TTAACATTTT
67847776 GACCATTTGGATTAATATTGAGACCAG
1 GACCATTTGGATTAATATTGAGACCAG
67847803 GACCATTTGGATT-ATCATTGAGACC
1 GACCATTTGGATTAAT-ATTGAGACC
67847828 GAGATCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (27 bp):
GACCATTTGGATTAATATTGAGACCAG
Found at i:67851236 original size:39 final size:40
Alignment explanation
Indices: 67851097--67851234 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
67851087 CGGATGATAA
67851097 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
67851137 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
67851177 CCGGGCTAAGTCCCGAAGGTAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
67851217 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
67851235 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.19
40 74 0.81
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67859053 original size:40 final size:40
Alignment explanation
Indices: 67858995--67859132 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
67858985 CGTATGATAA
*
67858995 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
*
67859035 CCGGGCTAAGTCTTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
67859075 CTGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
67859115 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCTCGAAGG
67859133 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 17 0.19
40 71 0.81
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67862825 original size:20 final size:20
Alignment explanation
Indices: 67862787--67862826 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
67862777 AGGACCAATT
*
67862787 TGTAAAAATGTTATAAAATG
1 TGTAAAAATGTGATAAAATG
* *
67862807 TGTAAAAGTGTGATTAAATG
1 TGTAAAAATGTGATAAAATG
67862827 AAAAATTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
TGTAAAAATGTGATAAAATG
Found at i:67863535 original size:2 final size:2
Alignment explanation
Indices: 67863528--67863552 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67863518 TTTTATACCC
67863528 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
67863553 AGAAGAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67868074 original size:3 final size:3
Alignment explanation
Indices: 67868066--67868108 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
67868056 CTCTTAAAAC
67868066 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
67868109 CACTATGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:67873048 original size:45 final size:45
Alignment explanation
Indices: 67872999--67873188 Score: 172
Period size: 45 Copynumber: 4.2 Consensus size: 45
67872989 AGCAACAATT
* *
67872999 TTATTTATTTCTAGAAT-GATGCCATAGTGTCTTTCAACTATGGTC
1 TTATTCATTTCTAGTATAG-TGCCATAGTGTCTTTCAACTATGGTC
* * * *
67873044 TTATTCATTTCCT--TCATATTGCCATAATTTTTTTCAACTATGGTC
1 TTATTCATTT-CTAGT-ATAGTGCCATAGTGTCTTTCAACTATGGTC
* * * * *
67873089 TTATTTAATTCTAGTATAGTGACGTAGTCTCTTTCAACTATGGTC
1 TTATTCATTTCTAGTATAGTGCCATAGTGTCTTTCAACTATGGTC
* * * *
67873134 TTATTCATTT-TCGGTATAATGTCATAGTGACTTTCAACTATGGTC
1 TTATTCATTTCT-AGTATAGTGCCATAGTGTCTTTCAACTATGGTC
*
67873179 TTACTCATTT
1 TTATTCATTT
67873189 GATTTATGAT
Statistics
Matches: 116, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
44 3 0.03
45 110 0.95
46 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.47
Consensus pattern (45 bp):
TTATTCATTTCTAGTATAGTGCCATAGTGTCTTTCAACTATGGTC
Found at i:67890896 original size:18 final size:20
Alignment explanation
Indices: 67890850--67890897 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
67890840 GATAAAAGTT
67890850 TTTTATTTTTATAAAATAGTA
1 TTTTATTTTTATAAAATAG-A
* *
67890871 TATTATTTTTA-AAGATA-A
1 TTTTATTTTTATAAAATAGA
67890889 TTTTATTTT
1 TTTTATTTT
67890898 CACAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
20 5 0.21
21 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATTTTTATAAAATAGA
Found at i:67902847 original size:9 final size:9
Alignment explanation
Indices: 67902833--67902861 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
67902823 AATCTGAACA
67902833 CTCCACCTC
1 CTCCACCTC
67902842 CTCCACCTC
1 CTCCACCTC
67902851 CTCCACCTC
1 CTCCACCTC
67902860 CT
1 CT
67902862 TTGATTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.66, G:0.00, T:0.24
Consensus pattern (9 bp):
CTCCACCTC
Found at i:67906068 original size:46 final size:46
Alignment explanation
Indices: 67906018--67906193 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
67906008 TGGTTGAGCA
*
67906018 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
67906064 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
67906110 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
*
67906155 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67906194 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 7, Indels: 14
0.84 0.05 0.10
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 71 0.62
47 28 0.25
49 1 0.01
50 2 0.02
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:67909151 original size:15 final size:15
Alignment explanation
Indices: 67909112--67909191 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
67909102 GTATCTTGGG
*
67909112 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
67909127 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
67909142 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
67909157 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
67909172 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
67909186 TTTCTT
1 TTTCTT
67909192 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:67909181 original size:30 final size:30
Alignment explanation
Indices: 67909103--67909190 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
67909093 CATAGTATCG
* * *
67909103 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
67909133 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
67909163 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
67909191 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:67911615 original size:46 final size:46
Alignment explanation
Indices: 67911565--67911785 Score: 279
Period size: 46 Copynumber: 4.8 Consensus size: 46
67911555 TGGTTGAGCA
*
67911565 TCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
67911611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
67911657 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
67911704 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
67911749 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67911786 GCGGGTTACA
Statistics
Matches: 151, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 1 0.01
45 32 0.21
46 77 0.51
47 33 0.22
48 1 0.01
49 2 0.01
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:67914086 original size:18 final size:18
Alignment explanation
Indices: 67914059--67914093 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67914049 GATATGGTTG
*
67914059 GAGTTGATAAAAGACTAT
1 GAGTTAATAAAAGACTAT
*
67914077 GAGTTAATAATAGACTA
1 GAGTTAATAAAAGACTA
67914094 CCGCCCGGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.29
Consensus pattern (18 bp):
GAGTTAATAAAAGACTAT
Found at i:67916996 original size:46 final size:48
Alignment explanation
Indices: 67916943--67917113 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 48
67916933 GACAAGAGCT
* * * *
67916943 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTAGAAATGTAAGTC
*
67916989 AGTGTAAGA-CATGTCTAGGACAT-GCATCCG-CTAGAAAATGT--GTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTAG-AAATGTAAGTC
* * * *
67917033 AATGTAAGACCATGTCTCGGACATGGCATCGGCAC-GGATATGTGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTAGAAATGT-A-AGTC
67917083 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGACCATGTCTAGGACATGGCATCG
67917114 ACTTGATGGA
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 10 0.10
45 16 0.15
46 44 0.42
47 1 0.01
48 1 0.01
50 32 0.31
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTAGAAATGTAAGTC
Found at i:67919488 original size:79 final size:80
Alignment explanation
Indices: 67919328--67919552 Score: 239
Period size: 79 Copynumber: 2.8 Consensus size: 80
67919318 TTGAATGATG
* * * *
67919328 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AG-TGACCATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGACTAAGTCCCGAAGGCATTTGTG--AGAGAT-ACTATAACCGGGCTAAG-TCCCGAAGGC
67919389 ATTTGTGCGAGATACTAAA
62 ATTTGTGCGAGATACTAAA
*
67919408 TCCGGACTAAGAT-CCGAAGGCATTTGTGAGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGAGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
67919470 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * * * *
67919487 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGAGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
67919552 G
66 G
67919553 AACGAGAAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
78 1 0.01
79 68 0.54
80 48 0.38
81 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGAGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:67919516 original size:40 final size:40
Alignment explanation
Indices: 67919328--67919552 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
67919318 TTGAATGATG
* * * *
67919328 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
67919368 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
67919408 TCCGGACTAAGAT-CCGAAGGCATTTGTGAGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
67919448 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
67919487 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
67919528 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
67919553 AACGAGAAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:67919574 original size:79 final size:79
Alignment explanation
Indices: 67919381--67919585 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
67919371 GGACTAAGAT
** **
67919381 CCGAAGGCATTTGTGCGAG-ATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGAGAGATAC
1 CCGAAGGCATTTGAACGAGTA-ACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGAGAGATAC
*
67919444 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** * * * *
67919460 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTAACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGAGAGATACTA
* *
67919524 ATAACTGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
67919540 CCGAAGGCATTTGAACGAG-AAGCTATATTC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTAA-CTAAATCCGGGTTAAATCCCGAAGG
67919586 TACGTGATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 78 0.74
80 24 0.23
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTAACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGAGAGATACTA
ATACCGGGCTAAGC
Found at i:67928627 original size:48 final size:48
Alignment explanation
Indices: 67928571--67928772 Score: 175
Period size: 48 Copynumber: 4.3 Consensus size: 48
67928561 CCCGGATATA
*
67928571 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
* * * * *
67928619 GTCTTACATGGGACCATAGATCAATGCCAATGCCATGTCCCAAACACT-
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACA-TG
* ** * * *
67928667 GTCTTCCATAAGATCACATATTGATGCCGAT---A-G-CCCAG-CTATA
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC-ATG
* ** * * *
67928710 GTCTTACACGAAATTATATATCGATGCCAAAGCCATGTCCCAGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
67928758 GTCTTACATGGGATC
1 GTCTTACATGGGATC
67928773 GTACATGAAC
Statistics
Matches: 115, Mismatches: 30, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
42 2 0.02
43 27 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 80 0.70
49 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
Found at i:67936555 original size:16 final size:15
Alignment explanation
Indices: 67936530--67936563 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
67936520 AAAGTTGATA
*
67936530 ATAATTAATATATATT
1 ATAATAAATATA-ATT
67936546 ATAATAAATATAATT
1 ATAATAAATATAATT
67936561 ATA
1 ATA
67936564 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:67947365 original size:32 final size:32
Alignment explanation
Indices: 67947328--67947394 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
67947318 TTGTTGTGGA
67947328 TTGAATTGGCTAGGTGTTTAAGTAAAATTTTT
1 TTGAATTGGCTAGGTGTTTAAGTAAAATTTTT
*
67947360 TTGAATTGGTTAGGTGTTTAAGTAAAATTTTT
1 TTGAATTGGCTAGGTGTTTAAGTAAAATTTTT
67947392 TTG
1 TTG
67947395 TTGCATTGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.49
Consensus pattern (32 bp):
TTGAATTGGCTAGGTGTTTAAGTAAAATTTTT
Found at i:67947407 original size:32 final size:31
Alignment explanation
Indices: 67947338--67947407 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 31
67947328 TTGAATTGGC
*
67947338 TAGGTGTTTAAGTAAAATTTTTTTGAATTGGT
1 TAGGTGTTTAAGTAAAATTTTTTTG-ATTGAT
67947370 TAGGTGTTTAAGTAAAATTTTTTTG-TTGCAT
1 TAGGTGTTTAAGTAAAATTTTTTTGATTG-AT
67947401 TGAGGTG
1 T-AGGTG
67947408 CCATTTTGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 3 0.09
31 2 0.06
32 30 0.86
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (31 bp):
TAGGTGTTTAAGTAAAATTTTTTTGATTGAT
Found at i:67973357 original size:43 final size:43
Alignment explanation
Indices: 67973310--67973417 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 43
67973300 TCCTAGATGT
67973310 GGTCTTACATGTAA-TCAAATATCG-ATG-CCACTGTCCCAGACAG
1 GGTCTTACATGTAACTCAAATA--GAATGTCCA-TGTCCCAGACAG
* *
67973353 GGTCTTACATG-AACTCAAATAGAATGTCGATGTCCCAGACAT
1 GGTCTTACATGTAACTCAAATAGAATGTCCATGTCCCAGACAG
*
67973395 GGTCTTACACGTAAATCTCAAAT
1 GGTCTTACATGT-AA-CTCAAAT
67973418 TGATGCCAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
41 1 0.02
42 26 0.46
43 20 0.36
44 2 0.04
45 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAACTCAAATAGAATGTCCATGTCCCAGACAG
Found at i:67981505 original size:106 final size:104
Alignment explanation
Indices: 67981281--67981506 Score: 364
Period size: 104 Copynumber: 2.2 Consensus size: 104
67981271 TGTATATAAA
** * *
67981281 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
67981346 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
67981385 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCAATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACC-ATATC
67981449 TTTGAAATGTGAAAGGGGGTTTGCTATGTGCTGATTCCCCCG
64 TTTGAAATGTGAAAGGGGG-TTGCTATGTGCTGATTCCCCCG
67981491 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
67981507 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
104 50 0.44
105 25 0.22
106 38 0.34
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:67981562 original size:71 final size:74
Alignment explanation
Indices: 67981423--67981576 Score: 233
Period size: 71 Copynumber: 2.1 Consensus size: 74
67981413 TCATTGGTGG
* * *
67981423 TGCTAAGTGCGATATCCACCAATATCTTTGAAATGTGAAAGGGGGTTTGCTATGTGCTGATTCCC
1 TGCTAAGTGCGATATCCACCAATATATTTGAAATATGAAAAGGGGTTTGCTATGTGCTGATTCCC
67981488 CCGAGGGGT
66 CCGAGGGGT
***
67981497 TGCTAAGTGCGATATCCA-TTGTATATTTGAAA-ATGAAAAGGGG-TTGCTATGTGCTGATTCCC
1 TGCTAAGTGCGATATCCACCAATATATTTGAAATATGAAAAGGGGTTTGCTATGTGCTGATTCCC
67981559 CCGAGGGGT
66 CCGAGGGGT
67981568 TGCTAAGTG
1 TGCTAAGTG
67981577 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 37 0.50
72 9 0.12
73 10 0.14
74 18 0.24
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (74 bp):
TGCTAAGTGCGATATCCACCAATATATTTGAAATATGAAAAGGGGTTTGCTATGTGCTGATTCCC
CCGAGGGGT
Found at i:67981581 original size:27 final size:27
Alignment explanation
Indices: 67981535--67981586 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
67981525 GAAAATGAAA
* *
67981535 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCCG
67981562 AGGGGTTGCTAAGTGATGATTCCCC
1 AGGGGTTGCTAAGTGATGATTCCCC
67981587 GATTCAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGATGATTCCCCCG
Found at i:67989015 original size:104 final size:103
Alignment explanation
Indices: 67988835--67989057 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
67988825 TGTATATAAA
** * *
67988835 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
67988900 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
67988939 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
67989003 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
67989042 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
67989058 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:67989109 original size:70 final size:72
Alignment explanation
Indices: 67988977--67989127 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
67988967 TCATTGGTGG
* *
67988977 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
67989041 GAGGGGT
66 GAGGGGT
***
67989048 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
67989112 GAGGGGT
66 GAGGGGT
67989119 TGCTAAGTG
1 TGCTAAGTG
67989128 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:67998811 original size:35 final size:35
Alignment explanation
Indices: 67998765--67998837 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
67998755 TTGGTTCCTA
67998765 CTACTGTTCTTCTCCTTTCCATACAGAACGTTGCT
1 CTACTGTTCTTCTCCTTTCCATACAGAACGTTGCT
* * *
67998800 CTACTGTTCTTCTCTTTTTCATACAGAACGTTGTT
1 CTACTGTTCTTCTCCTTTCCATACAGAACGTTGCT
67998835 CTA
1 CTA
67998838 TGTCTAGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.44
Consensus pattern (35 bp):
CTACTGTTCTTCTCCTTTCCATACAGAACGTTGCT
Found at i:68002149 original size:44 final size:46
Alignment explanation
Indices: 68002039--68002161 Score: 157
Period size: 44 Copynumber: 2.7 Consensus size: 46
68002029 GCTGTTAAGT
* *
68002039 GAGCCAGTGTAAGGCATGTCTGGGACATGCAT-CGACATTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCCGACA-TGAGACGA
68002085 GAGCTAGTGTAAGACATGTCTGGGACATGCATCCG-C-T-ACGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCCGACATGA-GACGA
*
68002128 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 -GAGCTAGTGTAAGACATGTCTGGGACATGCATC
68002162 GGTATAGATA
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
43 3 0.04
44 35 0.49
46 31 0.44
47 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCCGACATGAGACGA
Found at i:68002175 original size:44 final size:44
Alignment explanation
Indices: 68002044--68002175 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 44
68002034 TAAGTGAGCC
* * *
68002044 AGTGTAAGGCATGTCTGGGACATGCATCGACATTGAGACGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGATA-T-AGA-GATGTGCT
* *
68002090 AGTGTAAGACATGTCTGGGACATGCATCCGCTA-CGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCAT-CGATATAGAGATGTGCT
* *
68002134 AGTGTAAGACATGTCTGGGACATGCATCGGTATAGATATGTG
1 AGTGTAAGACATGTCTGGGACATGCATCGATATAGAGATGTG
68002176 AGAGCCAGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
43 6 0.08
44 40 0.53
46 26 0.35
47 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGATATAGAGATGTGCT
Found at i:68006340 original size:31 final size:31
Alignment explanation
Indices: 68006300--68006442 Score: 252
Period size: 31 Copynumber: 4.6 Consensus size: 31
68006290 TTAGTCTTGA
*
68006300 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
68006330 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
68006361 CATATCACTGGGCCGAAGACTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
68006392 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
68006423 CATATCACTAGGCCGAAGCC
1 CATATCACTGGGCCGAAGCC
68006443 GTTACTGTAA
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
30 5 0.05
31 103 0.95
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:68006516 original size:42 final size:42
Alignment explanation
Indices: 68006469--68006602 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
68006459 TGGCCCTTAG
*
68006469 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
68006511 GCCCATTTCAATATTACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
68006553 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
68006595 GCCCATTT
1 GCCCATTT
68006603 GGGGAGACTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:68006778 original size:25 final size:24
Alignment explanation
Indices: 68006742--68006820 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
68006732 GGCCTAGCAT
68006742 CTTTTAAT-AACTGGGGCAAAGCC
1 CTTTTAATAAACTGGGGCAAAGCC
* *
68006765 CTTTCTAATAAACTAGGGCAAATCC
1 CTTT-TAATAAACTGGGGCAAAGCC
** *
68006790 CTTTTCGGTAAACTGGGGCAGAGCC
1 CTTTT-AATAAACTGGGGCAAAGCC
*
68006815 CGTTTA
1 CTTTTA
68006821 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 35 0.80
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CTTTTAATAAACTGGGGCAAAGCC
Found at i:68007701 original size:27 final size:27
Alignment explanation
Indices: 68007629--68007693 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
68007619 GGCATAGTCC
* *
68007629 TCATTTTACCATACAAGGG-TATTACGG
1 TCATTTTACCTTACAGGGGCT-TTACGG
68007656 TCATTTTACCTTACAGGGGCTTTACGG
1 TCATTTTACCTTACAGGGGCTTTACGG
*
68007683 TCTTTTTACCT
1 TCATTTTACCT
68007694 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (27 bp):
TCATTTTACCTTACAGGGGCTTTACGG
Found at i:68007850 original size:27 final size:27
Alignment explanation
Indices: 68007723--68007879 Score: 102
Period size: 27 Copynumber: 5.7 Consensus size: 27
68007713 TTTCATCCTA
* * * ** *
68007723 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAT
** *
68007750 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAT
* **
68007777 CAATGGTATTTTTATAATTTT-TAGAAAGT
1 CAAGGGTATTTTGGTAATTTTGT--AAA-T
*
68007806 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTGTAAAT
* **
68007833 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAT
**
68007860 TGAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
68007880 CACAAACTAG
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
26 2 0.02
27 76 0.73
28 6 0.06
29 18 0.17
30 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAT
Found at i:68007884 original size:27 final size:26
Alignment explanation
Indices: 68007836--68007947 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
68007826 TGTAAATCAG
* *
68007836 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTCACAAACT-A
68007863 GGGTATTTTGGTAATTTCACAAACTA
1 GGGTATTTTGGTAATTTCACAAACTA
* *
68007889 GTGGTATTTAGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTCACAAACTA
** * *
68007916 GGGGTATTTCAGTAATTTCACAATCGA
1 -GGGTATTTTGGTAATTTCACAAACTA
68007943 GGGTA
1 GGGTA
68007948 AAACGGTAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.09
27 66 0.89
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTCACAAACTA
Found at i:68007967 original size:27 final size:27
Alignment explanation
Indices: 68007937--68008131 Score: 273
Period size: 27 Copynumber: 7.2 Consensus size: 27
68007927 GTAATTTCAC
68007937 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
68007964 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
68007991 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
68008018 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
68008045 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
68008072 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
68008099 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
68008126 AATCGA
1 AATCGA
68008132 TGGCATTTCA
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:68008154 original size:81 final size:81
Alignment explanation
Indices: 68007937--68008131 Score: 354
Period size: 81 Copynumber: 2.4 Consensus size: 81
68007927 GTAATTTCAC
*
68007937 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
*
68008002 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
*
68008018 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
68008083 AAACGATAATTCTATA
66 AAACGATAATTCTATA
*
68008099 AATCGAGGGTAAAATGGTAATTCTACAAATCGA
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGA
68008132 TGGCATTTCA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
AAACGATAATTCTATA
Found at i:68010575 original size:40 final size:40
Alignment explanation
Indices: 68010515--68010737 Score: 374
Period size: 40 Copynumber: 5.6 Consensus size: 40
68010505 CAAGCTCAAT
* * * * *
68010515 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
68010555 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
68010595 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
68010635 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
68010675 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
68010715 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
68010738 GTATTCAAAT
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:68013584 original size:19 final size:19
Alignment explanation
Indices: 68013560--68013599 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
68013550 CTCCAAAAAC
68013560 TTGTTCAACCGTCAGAGGT
1 TTGTTCAACCGTCAGAGGT
**
68013579 TTGTTCAAGTGTCAGAGGT
1 TTGTTCAACCGTCAGAGGT
68013598 TT
1 TT
68013600 CCCAGTCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (19 bp):
TTGTTCAACCGTCAGAGGT
Found at i:68014994 original size:15 final size:15
Alignment explanation
Indices: 68014974--68015003 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68014964 GCAACTTCTC
68014974 CAATGGAAAATGTTG
1 CAATGGAAAATGTTG
*
68014989 CAATGGCAAATGTTG
1 CAATGGAAAATGTTG
68015004 GCATAGAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (15 bp):
CAATGGAAAATGTTG
Found at i:68018765 original size:12 final size:12
Alignment explanation
Indices: 68018750--68018790 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
68018740 AAAATTAAAA
68018750 TTAATTATATTG
1 TTAATTATATTG
**
68018762 TTAATTA-A-AA
1 TTAATTATATTG
68018772 TTAATTATATTG
1 TTAATTATATTG
68018784 TTAATTA
1 TTAATTA
68018791 AAAAACATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 7 0.30
11 2 0.09
12 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (12 bp):
TTAATTATATTG
Found at i:68018767 original size:22 final size:22
Alignment explanation
Indices: 68018742--68018793 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
68018732 ATTGGATTAA
68018742 AATTAAAATTAATTATATTGTT
1 AATTAAAATTAATTATATTGTT
68018764 AATTAAAATTAATTATATTGTT
1 AATTAAAATTAATTATATTGTT
68018786 AATTAAAA
1 AATTAAAA
68018794 AACATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
AATTAAAATTAATTATATTGTT
Found at i:68019670 original size:11 final size:10
Alignment explanation
Indices: 68019654--68019687 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
68019644 ACATATGCTC
68019654 TCTTTTTTTCT
1 TCTTTTTTT-T
68019665 TCTTTTTCTTT
1 TCTTTTT-TTT
68019676 TCTTTTTTTT
1 TCTTTTTTTT
68019686 TC
1 TC
68019688 ACTAGCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 15 0.68
12 2 0.09
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:68020935 original size:3 final size:3
Alignment explanation
Indices: 68020927--68020985 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
68020917 CTTTGGGATC
* * *
68020927 TTA TTA TTA TTA TTA TTA TTA TTC TTT TTC TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68020975 TTA TTA TTA TT
1 TTA TTA TTA TT
68020986 CAAGATCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:68022750 original size:29 final size:30
Alignment explanation
Indices: 68022695--68022752 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
68022685 GCCTTTCGAA
* *
68022695 AATATTTACAAAAAGCGACATCTAATTTTT
1 AATATTTACAAAAAGCGACACCAAATTTTT
68022725 AATATTTACAAAAGAGC-A-ACCAAATTTT
1 AATATTTACAAAA-AGCGACACCAAATTTT
68022753 CAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 14 0.56
31 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGCGACACCAAATTTTT
Found at i:68025644 original size:25 final size:25
Alignment explanation
Indices: 68025459--68025632 Score: 285
Period size: 25 Copynumber: 7.0 Consensus size: 25
68025449 GTTAACTTGC
*
68025459 TCTTAATAATTCTGGTTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
68025484 TCTTAATAATTCCGGTTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
*
68025509 TCTTAATAATTTCGGTTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
68025534 TCTTAATAATTCCGGTTAAATTTGT
1 TCTTAATAATTCCGGTTAAATTTGT
*
68025559 TCTTAATAATTCCGGTTAAATTTTT
1 TCTTAATAATTCCGGTTAAATTTGT
* *
68025584 TCTTAATAATTTCGGTTAAATTTGC
1 TCTTAATAATTCCGGTTAAATTTGT
* *
68025609 TCTTAATATTTTCGGTTAAATTTG
1 TCTTAATAATTCCGGTTAAATTTG
68025633 CCCTTATTAT
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 141 1.00
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (25 bp):
TCTTAATAATTCCGGTTAAATTTGT
Found at i:68026513 original size:45 final size:45
Alignment explanation
Indices: 68026449--68026744 Score: 426
Period size: 45 Copynumber: 6.6 Consensus size: 45
68026439 TATTGTACAG
*
68026449 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGA-TGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGAGTGAGA
*
68026494 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCGAGTGAGA
* * *
68026539 TACTATTCGGGCCTTTGAGCTTCGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCGAGTGAGA
* *
68026584 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCTAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCGAGTGAGA
68026629 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGA-TGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGAGTGAGA
*
68026674 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGTCG-GTGA-A
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGAGTGAGA
*
68026718 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
68026745 AAAATGCCGG
Statistics
Matches: 235, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
42 17 0.07
43 5 0.02
44 6 0.03
45 205 0.87
46 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCGAGTGAGA
Found at i:68030189 original size:26 final size:26
Alignment explanation
Indices: 68030153--68030205 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
68030143 TTATACAAGT
68030153 TATGATAGTGTTACATCTCCTAACTA
1 TATGATAGTGTTACATCTCCTAACTA
68030179 TATGATAGTGTTACATCTCCTAACTA
1 TATGATAGTGTTACATCTCCTAACTA
68030205 T
1 T
68030206 TTTTAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (26 bp):
TATGATAGTGTTACATCTCCTAACTA
Found at i:68032279 original size:43 final size:44
Alignment explanation
Indices: 68032213--68032339 Score: 109
Period size: 45 Copynumber: 2.9 Consensus size: 44
68032203 TTTTCTCAAA
* * * *
68032213 TCACTGGCATT-TTGCCTGTTAGGCTCG-AGGCCCGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-AAAT-AGATC
*
68032255 TCACCGGCATTATAGCCTGCTAGGCTTGAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAAATAG-ATC
** * * *
68032300 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAAATA
68032340 ATCAACTCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 12 0.17
43 16 0.23
44 7 0.10
45 34 0.49
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAAATAGATC
Found at i:68032760 original size:43 final size:43
Alignment explanation
Indices: 68032670--68032865 Score: 322
Period size: 43 Copynumber: 4.6 Consensus size: 43
68032660 CGGCATTACA
*
68032670 CCTGCTAGGCACGAAGGTCCGAATACACA-CACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
68032712 GCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
68032755 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
68032798 CCTGCTAGGCACGAAGGCCTGAGTACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
68032841 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
68032866 TAATATCAGC
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 26 0.18
43 117 0.82
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:68032915 original size:38 final size:38
Alignment explanation
Indices: 68032858--68032941 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
68032848 GGCACGAAGG
* * *
68032858 CCCGAATATAATATCAGCACTAGGCCTGCAGGATTTAT
1 CCCGAATATAATATCAGCACGAAGCCTGCAGGATTTAA
* *
68032896 CCCGGATATAATA-CTAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATATC-AGCACGAAGCCTGCAGGATTTAA
68032934 CCCGAATA
1 CCCGAATA
68032942 CACATCAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.03
38 38 0.97
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATATCAGCACGAAGCCTGCAGGATTTAA
Found at i:68067629 original size:27 final size:25
Alignment explanation
Indices: 68067598--68067667 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
68067588 TGTTTACATT
*
68067598 AATTTAAATATATAATTTTAATATTCA
1 AATTTAAATATATAATTTT--TATTAA
** *
68067625 AATTTACTTATATTATTTTTATTAA
1 AATTTAAATATATAATTTTTATTAA
**
68067650 AAAATAAATATATAATTT
1 AATTTAAATATATAATTT
68067668 AAAATGTAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 18 0.53
27 16 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (25 bp):
AATTTAAATATATAATTTTTATTAA
Found at i:68067982 original size:13 final size:14
Alignment explanation
Indices: 68067960--68067991 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
68067950 TCAACTATTC
68067960 TAAA-ATTTTAAT-
1 TAAATATTTTAATG
68067972 TAAATATTTTAATG
1 TAAATATTTTAATG
68067986 TAAATA
1 TAAATA
68067992 AAAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 8 0.44
14 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TAAATATTTTAATG
Found at i:68068334 original size:14 final size:14
Alignment explanation
Indices: 68068315--68068361 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
68068305 TAAAACTTAA
68068315 AATTTTTTATTATT
1 AATTTTTTATTATT
*
68068329 AATTTTTTA-GA-T
1 AATTTTTTATTATT
68068341 -A-TTTTTATTATT
1 AATTTTTTATTATT
68068353 AATTTTTTA
1 AATTTTTTA
68068362 GAAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 6 0.22
11 2 0.07
12 2 0.07
13 2 0.07
14 15 0.56
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (14 bp):
AATTTTTTATTATT
Found at i:68068345 original size:24 final size:24
Alignment explanation
Indices: 68068318--68068363 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
68068308 AACTTAAAAT
68068318 TTTTTATTATTAATTTTTTAGATA
1 TTTTTATTATTAATTTTTTAGATA
68068342 TTTTTATTATTAATTTTTTAGA
1 TTTTTATTATTAATTTTTTAGA
68068364 AAATATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTTATTATTAATTTTTTAGATA
Found at i:68069624 original size:126 final size:126
Alignment explanation
Indices: 68069360--68070014 Score: 868
Period size: 126 Copynumber: 5.2 Consensus size: 126
68069350 TATAGTTAGT
*
68069360 AAAAGTACTGAAAAAAGCTCCTAGCTGGACGCTCTTTTTGTACAGTTGTTTCTG-AAAAATAATT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * *
68069424 TTGAGAAGATGGTTCT-AAAAAAAAGGTTGAAAAACACTTCAAGCAGGATGCACTATCAAC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAAGATGCACTATCAGC
* * *
68069484 AAAAGTACTAAAAAAAACTCTCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * * *
68069549 TTGAGAAGATTGTTCTAAAAAAATAGGTTTAAAAACGCTCCAAGCAAGATCCACTATCAGC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAAGATGCACTATCAGC
* * * * *
68069610 AAAAGTACT-CAAAAAGCTCCCAGTTGGACGCTTTTTTTGTACAATTGCTTCTG-AAAAATAATT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * *
68069673 TTGAGAAGATGGTTGTGAAAAAATAGGTTGAAAAATGCTTCAAGCAAGATGCACTGTTAGC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAAGATGCACTATCAGC
* * *
68069734 AAAAGTACTAAAAAAAGCTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * * * *
68069799 TTGAGATGATGGTTTTGGAAAAATAGGTTAAAAAACGCTTCAAGCAGGATGCACTGTCAGC
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAAGATGCACTATCAGC
* * * * *
68069860 AAAAGTATTGAAAAAAGCTCCCAACTAGACGCTCTTTTTGTATAGTTGTTTCTAAAAAAATAATT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
* * * * * *
68069925 TTGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAATGCTTCAAGGAGGATGCACTATTAGT
66 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAAGATGCACTATCAGC
* * * *
68069986 AGAAGTAATGAAAAAATCTCCCAACTGGA
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGA
68070015 TGTTTTTTTC
Statistics
Matches: 469, Mismatches: 58, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
124 121 0.26
125 99 0.21
126 249 0.53
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (126 bp):
AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATT
TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAAGATGCACTATCAGC
Found at i:68069801 original size:250 final size:251
Alignment explanation
Indices: 68069360--68070011 Score: 921
Period size: 250 Copynumber: 2.6 Consensus size: 251
68069350 TATAGTTAGT
*
68069360 AAAAGTACTGAAAAAAGCTCCTAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
* ** * *
68069425 TGAGAAGATGGTTCT-AAAAAAAAGGTTGAAAAACACTTCAAGCAGGATGCACTATCAACAAAAG
66 TGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTATTAGCAAAAG
* * *
68069489 TACTAAAAAAAACTCTCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
131 TACTAAAAAAAACTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
* *
68069554 AAGATTGTTCTAAAAAAATAGGTTTAAAAACGCTCCAAGCAAGATCCACTATCAGC
196 AAGATGGTTCTAAAAAAATAGGTTAAAAAACGCTCCAAGCAAGATCCACTATCAGC
* * * * *
68069610 AAAAGTACT-CAAAAAGCTCCCAGTTGGACGCTTTTTTTGTACAATTGCTTCTGAAAAATAATTT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
* * *
68069674 TGAGAAGATGGTTGTGAAAAAATAGGTTGAAAAATGCTTCAAGCAAGATGCACTGTTAGCAAAAG
66 TGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTATTAGCAAAAG
*
68069739 TACTAAAAAAAGCTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
131 TACTAAAAAAAACTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
* * ** * * * *
68069804 ATGATGGTTTTGGAAAAATAGGTTAAAAAACGCTTCAAGCAGGATGCACTGTCAGC
196 AAGATGGTTCTAAAAAAATAGGTTAAAAAACGCTCCAAGCAAGATCCACTATCAGC
* * * * *
68069860 AAAAGTATTGAAAAAAGCTCCCAACTAGACGCTCTTTTTGTATAGTTGTTTCTAAAAAAATAATT
1 AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCT-GAAAAATAATT
* * * *
68069925 TTGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAATGCTTCAAGGAGGATGCACTATTAGTAGAA
65 TTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTATTAGCAAAA
* * *
68069990 GTAATGAAAAAATCTCCCAACT
130 GTACTAAAAAAAACTCCCAACT
68070012 GGATGTTTTT
Statistics
Matches: 352, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
249 63 0.18
250 166 0.47
251 35 0.10
252 88 0.25
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (251 bp):
AAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAATAATTT
TGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTATTAGCAAAAG
TACTAAAAAAAACTCCCAACTAGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATAATTTTGAG
AAGATGGTTCTAAAAAAATAGGTTAAAAAACGCTCCAAGCAAGATCCACTATCAGC
Found at i:68076503 original size:37 final size:37
Alignment explanation
Indices: 68076453--68076529 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
68076443 TTCTGTGGGA
68076453 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
1 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
68076490 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
1 TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
68076527 TTA
1 TTA
68076530 TTGTGCATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (37 bp):
TTACACACTGAGTTTACGTAAACTCACCCTTTTTTGT
Found at i:68079046 original size:15 final size:15
Alignment explanation
Indices: 68079028--68079070 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
68079018 TTTAAATAAC
68079028 GAATTATACAATATT
1 GAATTATACAATATT
68079043 GAATTATACTAAT-TT
1 GAATTATAC-AATATT
68079058 G-ATCTATACAATA
1 GAAT-TATACAATA
68079071 AATTGCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.20
15 17 0.68
16 3 0.12
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (15 bp):
GAATTATACAATATT
Found at i:68102942 original size:21 final size:20
Alignment explanation
Indices: 68102916--68102959 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
68102906 TAAAGCCTTA
68102916 TTTTGGATTAT-GGTTTGAGGT
1 TTTTGGATT-TGGGTTTG-GGT
68102937 TTTTGGATTTGGGTTTGGGT
1 TTTTGGATTTGGGTTTGGGT
68102957 TTT
1 TTT
68102960 ATGCATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.57
Consensus pattern (20 bp):
TTTTGGATTTGGGTTTGGGT
Found at i:68119813 original size:69 final size:69
Alignment explanation
Indices: 68119729--68119866 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
68119719 AACACGGCCT
*
68119729 GGCAATCACGTCACACGGTCGTGGTACACGAGCGTGTCCCTACCGAGCCCAAGTTAAGTCCAATT
1 GGCAATCACGTCACACGGTCGTGGCACACGAGCGTGTCCCTACCGAGCCCAAGTTAAGTCCAATT
68119794 CGGA
66 CGGA
*
68119798 GGCAATCACGTCACACGGTCGTGGCACACGGGCGTGTCCCTACCGAGCCCAAGTTAAGTCCAATT
1 GGCAATCACGTCACACGGTCGTGGCACACGAGCGTGTCCCTACCGAGCCCAAGTTAAGTCCAATT
68119863 CGGA
66 CGGA
68119867 AAAGGCCATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (69 bp):
GGCAATCACGTCACACGGTCGTGGCACACGAGCGTGTCCCTACCGAGCCCAAGTTAAGTCCAATT
CGGA
Found at i:68123354 original size:46 final size:46
Alignment explanation
Indices: 68123301--68123476 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
68123291 TGGTTGAGCA
68123301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
68123347 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
68123392 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68123440 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68123477 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68123457 original size:93 final size:93
Alignment explanation
Indices: 68123298--68123469 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
68123288 GGATGGTTGA
* * *
68123298 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68123363 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
68123391 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68123456 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
68123470 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68137767 original size:171 final size:173
Alignment explanation
Indices: 68137469--68137929 Score: 516
Period size: 171 Copynumber: 2.6 Consensus size: 173
68137459 AAACACCTTT
* * * * * *
68137469 AGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGACAAGGTTCACCATCT
1 AGAGAGATGAGGCTAGTGGTAAAATCTACT-C--T---GATACATAGAGATAAGATTAACCATCT
* * * * * *
68137534 GCGAAAATCTACTCTACTGCAATCTC-GGAGAGATAAAATCTTCAATTCTCAGTTTGCTTCCTTG
60 GCGAAGATCTATTCCACTGCAACCTCAGG-GAGATAAAATCTTCAATTCTCAGTCTACTTCCTTG
* * * *
68137598 CTACCTCAGGAAGATAGGGCTCATTCTTCATCTTGCTCTCTTACTACCTC
124 CTACCTCAAGAAGATAAGACTCATTCTTCATCCTGCTCTCTTACTACCTC
* *
68137648 AGAGAGATGAGGCTAGTGGTAAAATCTAC-C-GATGCAT-GAAGATAAGATTAACCATCTGTGAA
1 AGAGAGATGAGGCTAGTGGTAAAATCTACTCTGATACATAG-AGATAAGATTAACCATCTGCGAA
* *
68137710 GATCTGTTCCACTGCAACCTCAGGGAGATAAAATCTTTAATTCTCAGTCTACTTCCTTGCTACCT
65 GATCTATTCCACTGCAACCTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCT
* * * *
68137775 CAAGAAGATAAGACTCATTTTTCATCCTGTTCTCTTACTATCTT
130 CAAGAAGATAAGACTCATTCTTCATCCTGCTCTCTTACTACCTC
* * *
68137819 AGAGAGATGAGGCTGGTGGTAAAATCTGCTCTATTTTTGATACATAGAGATAAGATTCACCATCT
1 AGAGAGATGAGGCTAGTGGTAAAATCTACTC------TGATACATAGAGATAAGATTAACCATCT
*
68137884 GCGAAGATCTATTCCACTGCAACTTCAGGGAGATAAAATCTTCAAT
60 GCGAAGATCTATTCCACTGCAACCTCAGGGAGATAAAATCTTCAAT
68137930 CTTTATCAAT
Statistics
Matches: 240, Mismatches: 31, Indels: 22
0.82 0.11 0.08
Matches are distributed among these distances:
170 1 0.00
171 142 0.59
172 3 0.01
177 1 0.00
179 92 0.38
180 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (173 bp):
AGAGAGATGAGGCTAGTGGTAAAATCTACTCTGATACATAGAGATAAGATTAACCATCTGCGAAG
ATCTATTCCACTGCAACCTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTC
AAGAAGATAAGACTCATTCTTCATCCTGCTCTCTTACTACCTC
Found at i:68156167 original size:17 final size:17
Alignment explanation
Indices: 68156145--68156187 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
68156135 ATTTCATTTA
**
68156145 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
68156162 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
68156179 AAAT-TCAAT
1 AAATGTCAAT
68156188 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:68158378 original size:30 final size:30
Alignment explanation
Indices: 68158342--68158402 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
68158332 CAAAGTCTGT
68158342 TTCAACCGCATTAACTCATAATTATAAGAA
1 TTCAACCGCATTAACTCATAATTATAAGAA
*
68158372 TTCAACCTCATTAACTCATAATTATAAGAA
1 TTCAACCGCATTAACTCATAATTATAAGAA
68158402 T
1 T
68158403 ATCCCGACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (30 bp):
TTCAACCGCATTAACTCATAATTATAAGAA
Found at i:68159461 original size:19 final size:19
Alignment explanation
Indices: 68159437--68159477 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
68159427 TCTTGTAATC
*
68159437 AACACTGTAACAATAAACT
1 AACACTGGAACAATAAACT
68159456 AACACTGGAACAATAAACT
1 AACACTGGAACAATAAACT
68159475 AAC
1 AAC
68159478 TGGCATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.54, C:0.22, G:0.07, T:0.17
Consensus pattern (19 bp):
AACACTGGAACAATAAACT
Found at i:68166326 original size:27 final size:28
Alignment explanation
Indices: 68166281--68166333 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
68166271 TACTTCTGTT
* *
68166281 ACTGATAAGGGCTAAGGCCCTAATTGAG
1 ACTGATAAAGGCTAAGGCCCAAATTGAG
*
68166309 ACTGA-AAAGGCTTAGGCCCAAATTG
1 ACTGATAAAGGCTAAGGCCCAAATTG
68166334 TGTATTCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (28 bp):
ACTGATAAAGGCTAAGGCCCAAATTGAG
Found at i:68183750 original size:42 final size:42
Alignment explanation
Indices: 68183631--68183750 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
68183621 TACCATACCA
* * **
68183631 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
68183673 ATGCCAATAGCCCAGCTATGGTCTTATACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
68183716 ATTCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCT
68183751 TAACTCACCC
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:68193628 original size:41 final size:41
Alignment explanation
Indices: 68193577--68193658 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
68193567 CCAGAGGAGG
* *
68193577 TAACCCCAGCAGCAGTAGAGACAAAGAAGGAAATAACTAAA
1 TAACCACAGCAGCAGCAGAGACAAAGAAGGAAATAACTAAA
68193618 TAACCACAGCAGCAGCAGAGACAAAGAAGGAAATAACTAAA
1 TAACCACAGCAGCAGCAGAGACAAAGAAGGAAATAACTAAA
68193659 GATTCTGCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.52, C:0.20, G:0.20, T:0.09
Consensus pattern (41 bp):
TAACCACAGCAGCAGCAGAGACAAAGAAGGAAATAACTAAA
Found at i:68195096 original size:18 final size:19
Alignment explanation
Indices: 68195073--68195108 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
68195063 AAATGGTCAT
68195073 CTTTTGC-TTTTGCTTTTG
1 CTTTTGCTTTTTGCTTTTG
68195091 CTTTTGCTTTTTGCTTTT
1 CTTTTGCTTTTTGCTTTT
68195109 TTTTAGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.00, C:0.17, G:0.14, T:0.69
Consensus pattern (19 bp):
CTTTTGCTTTTTGCTTTTG
Found at i:68195109 original size:7 final size:6
Alignment explanation
Indices: 68195073--68195108 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
68195063 AAATGGTCAT
68195073 CTTTTG CTTTTG CTTTTG CTTTTG CTTTTTG CTTTT
1 CTTTTG CTTTTG CTTTTG CTTTTG C-TTTTG CTTTT
68195109 TTTTAGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.00, C:0.17, G:0.14, T:0.69
Consensus pattern (6 bp):
CTTTTG
Found at i:68196788 original size:16 final size:15
Alignment explanation
Indices: 68196762--68196794 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
68196752 GAAGGTTTGT
68196762 TTTAAAATTTTTACG
1 TTTAAAATTTTTACG
68196777 TTTAAAATTTTTACG
1 TTTAAAATTTTTACG
68196792 TTT
1 TTT
68196795 CTTTTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTAAAATTTTTACG
Found at i:68204269 original size:25 final size:25
Alignment explanation
Indices: 68204241--68204308 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
68204231 CTTGTACTTG
*
68204241 TATGCTCACACGAGCTGTAAAACGA
1 TATGCTCTCACGAGCTGTAAAACGA
** *
68204266 TATGCTCTCACGAGCTGTAAGTCGG
1 TATGCTCTCACGAGCTGTAAAACGA
68204291 TATGCTCTCACGAGCTGT
1 TATGCTCTCACGAGCTGT
68204309 GGGTCAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (25 bp):
TATGCTCTCACGAGCTGTAAAACGA
Found at i:68205599 original size:15 final size:15
Alignment explanation
Indices: 68205579--68205632 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
68205569 GACTTATGGC
68205579 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
68205594 ATATTTATAATTATAAT
1 ATATTTATTA-T-TAAT
*
68205611 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
68205628 ATATT
1 ATATT
68205633 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:68205618 original size:19 final size:19
Alignment explanation
Indices: 68205594--68205630 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68205584 TATTATTAAT
*
68205594 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
68205613 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
68205631 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:68205750 original size:21 final size:20
Alignment explanation
Indices: 68205725--68205768 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
68205715 ATATTAAATA
68205725 ATTTATTAAAATAATAATTAT
1 ATTTATTAAAATAATAATT-T
* *
68205746 ATTTATTATATTAATAATTT
1 ATTTATTAAAATAATAATTT
68205766 ATT
1 ATT
68205769 ATAAGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATTAAAATAATAATTT
Done.